New junction evidence
		seq id	position	reads (cov)	reads (cov)	score	skew	freq	annotation	gene	product
*	?	NC_000913	2380507 =	28 (0.700)	3 (0.080)	3/254	NT	10.0%	coding (137/1296 nt)	menF	isochorismate synthase MenF
	?	NC_000913	2380519 =	27 (0.700)					coding (125/1296 nt)	menF	isochorismate synthase MenF

GTGCTGGCGAAGAAAACGTTGTGCCTGGTCCAACGACGTAAAACGGGTAATCGCGCCCAGGACGACAGCTTCTTCATCACCATTACGTTGTTGCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACC  >  NC_000913/2380386‑2380650                                                                                                                                          |                                                                                                                                    gTGCTGGCGAAGAAAACGTTGTGCCTGGTCCAACGACGTAAAACGGGTAATCGCGCCCAGGACGACAGCTTCTTCATCACCATTACGTTGTTGCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCAt                                                                                                                            <  1:298628/143‑1 (MQ=255)    ttGGCGAATGAAACGCTGTGCCTGGTCCATCGACGTAAAACGTGTATTCTCGCTCAAGACGACAGCTTCCTCCTACCGCCGACGTGGTTGCCAGTCGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCGCAAGGCATCaa                                                                                                                         <  2:727219/142‑1 (MQ=255)        cGAAGAAACCGTTCGGCCTGGTCCAACGACGTAAATCGGGTAATCGCGCCCAGGACGACAGCTTCTTCATCACCATTCCGTTGTTGCCCGTAGAATAGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGc                                                                                                                     <  2:430500/143‑1 (MQ=255)         gaagaaAACGTTGTGCCTGGTCCAACGACGTAAAACGGGTAATCGCGCCCAGGACGACAGCTTCTTCATCACCATTAAGTTGTAGACAGTAGAATTGCGGGAAAGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCGAAAgtg                                                                                                                    >  1:115532/1‑141 (MQ=255)         actacggcggtggaaaatctactgcgccatttgtcgcaagagattccggcgacacccggcattcgggttatcgatattcctttccctctcaaagacgcttttgatgccttgagCTGACTGGCCAGCCAGCTCAAGGCATCaaa                                                                                                                        >  1:736885‑M1/114‑143 (MQ=255)                            gTCCAACGACGTAAAACGGGTAATCGCGCCCAGGACGACAGCTTCTTCATCACCATTACGTTGTTGCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAAAGGGAAAGGaa                                                                                                 >  2:714281/1‑143 (MQ=255)                               tgcgccatttgtcgcaagagattccggcgacacccggcattcgggttatcgatattcctttccctctcaaagacgcttttgatgccttgagCTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAgg                                                                                                   <  2:579763‑M1/47‑1 (MQ=255)                               tgcgccatttgtcgcaagagattccggcgacacccggcattcgggttatcgatattcctttccctctcaaagacgcttttgatgccttgagCTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAgg                                                                                                   >  1:579763‑M1/92‑138 (MQ=255)                               cAACGACGTAAAACGGGTAATCGCGCCCAGGACGACAGCTTCTTCATCACCATTACGTTGTTGCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGCGGGAAAGGAatat                                                                                              >  2:108149/1‑143 (MQ=255)                                      gTAAAACGGGTAATCGCGCCCAGGACGACAGCTTCTTCATCACCATTACGTTGTTGCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGGGGGAAAGGAATATCGATAAc                                                                                       >  2:241881/1‑143 (MQ=255)                                            cGGGTGATCGCGGCCAGGACGACAGCTGCTTCAGCCCCATTACGTTGTTGCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAAt                                                                                 <  2:490964/143‑1 (MQ=255)                                                tcaTCGCGCCCAGGACGACAGATCATTCATAAGCAATACGGTGTTGAGAGTGGAATTGGGGGTTTGAGTGGTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCCAAAGCGTTGTCGGGCGCGTAAGGAATATCGATAACCCGAATGCCg                                                                             <  2:386151/141‑1 (MQ=255)                                                 aaacgcgCCCAAGATCACTCCGTCATCATCACCATTACGTTGTTGCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCgg                                                                            <  1:529071/140‑1 (MQ=255)                                                 aaTTGCGCCCAGGACGACAGCTTCTTCATCACCATTACGGTGTTGCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCgg                                                                            <  2:454442/143‑1 (MQ=255)                                                 aaTCGCGCCCAGGACGACAGCTTCTTCATCACCATTACGTTGTTGCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCgg                                                                            <  1:258538/143‑1 (MQ=255)                                                           aGGACGACAGCTTCTTCATCACCATTACGTTGTTGCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCGGGTGTCGCCgg                                                                  >  1:734572/1‑143 (MQ=255)                                                             gacgacAGCTTCTTCATCACCATTACGTTGTTGCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGCAAGGAATATCGATCACCCGAATGCCGGGTGTCGCCGGaa                                                                >  2:530235/1‑143 (MQ=255)                                                                   aGCTTCTTCATCACCGTTGCGCTGTTGTCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCtt                                                          <  2:380867/143‑1 (MQ=255)                                                                    gCTTCTTCATCACGTTTGCGTTGTTGCCAGTAGAATTGCGTGTATGTTTGCTGACTG‑‑‑‑GCCAGCTAGCTCAAGGCATCACAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTg                                                         <  2:244746/143‑1 (MQ=255)                                                                    gCTTCTTCATCAACATTACGTTGGTGGCAGGAGAATTGCGGGTATGTTGGCTGACTG‑‑‑‑GCGAGCGAGCTCAAGGGGTCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTg                                                         <  1:548219/143‑1 (MQ=255)                                                                             tcaCCATTACGTTGTTGCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCGGGTGTCGCCCGACTCTCTTGCGACAAATg                                                >  1:441947/1‑143 (MQ=255)                                                                              caCCGTGACGTCGTTGCCAGTAGCATTGCGGGTCTGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATgg                                               <  1:370406/143‑1 (MQ=255)                                                                              caCCATTACGTTGTTGCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCGGGTGGACCCGGAATCTCTTGCGACAAATgg                                               >  2:450733/1‑143 (MQ=255)                                                                               aCCATTACGTTGTTGCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGgc                                              <  2:233947/143‑1 (MQ=255)                                                                                       gttgttGCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGa                                      >  2:333179/1‑143 (MQ=255)                                                                                          gttgCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATACCCCGAACGCCGGGTGTCGCCCGACTCTCTTGCGCCATATTGCGCAGTAGAttt                                   >  1:350494/1‑143 (MQ=255)                                                                                           cctttccctctcaaagacgcttttgatgccttgagctggctggccagCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCa                                           >  1:579763‑M2/48‑138 (MQ=255)                                                                                           cctttccctctcaaagacgcttttgatgccttgagctggctggccagCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCa                                           <  2:579763‑M2/91‑1 (MQ=255)                                                                                                         gCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCgtagta                    >  1:129890/1‑143 (MQ=255)                                                                                                          cGGGTATGGTCGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGTATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAGCCCGAATGCCGGGTGTCGCCGGAATCTCGTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTaa                   <  1:244124/143‑1 (MQ=255)                                                                                                           gggTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAGAGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGCATCTCTTGAGACAAATGGCGCAGTAAATTTTGCAGCGCCgtaagagg                  >  2:70747/1‑138 (MQ=255)                                                                                                            tttgatgccttgagctggctggccagtcagCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCACCGCCgtagt                     >  1:736885‑M2/31‑143 (MQ=255)                                                                                                                      cTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAANAGCGTCTTTGAGAGGGAAAGGAATAGCGATAACGCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGAGGTTCCAGCGCCGGAGTAAGTGAGTGCAcgc       >  1:605026/1‑143 (MQ=255)                                                                                                                           TG‑‑‑‑GCCAGCCAGCTCGAGGGATCAAAGGCGTCTTTGAGAGGGAAAGGAATTTCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGAcc  >  2:606514‑M1/1‑143 (MQ=255)                                                                                                                                          |                                                                                                                                    GTGCTGGCGAAGAAAACGTTGTGCCTGGTCCAACGACGTAAAACGGGTAATCGCGCCCAGGACGACAGCTTCTTCATCACCATTACGTTGTTGCCAGTAGAATTGCGGGTATGTTTGCTGACTG‑‑‑‑GCCAGCCAGCTCAAGGCATCAAAAGCGTCTTTGAGAGGGAAAGGAATATCGATAACCCGAATGCCGGGTGTCGCCGGAATCTCTTGCGACAAATGGCGCAGTAGATTTTCCAGCGCCGTAGTAAGTGATTGCACGCGGACC  >  NC_000913/2380386‑2380650

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑
Reads not counted as support for junction
read_name Not counted due to insufficient overlap past the breakpoint.
read_name Not counted due to not crossing MOB target site duplication.